# No Parameter Endpoints ------------------------------------------------------- test_that("test endpoints- no parameters works without error", { skip_on_cran() skip_if(httr::http_error("www.cbioportal.org/api")) db_test <- "public" set_cbioportal_db(db = db_test) endpoint_funs <- c(available_profiles = available_profiles, available_gene_panels = available_gene_panels, available_studies = available_studies, get_genes = get_genes) res <- expect_error(purrr::map(endpoint_funs, function(fn) rlang::exec(fn)), NA) expect_equal(names(res), names(endpoint_funs)) }) # Test lookup_id() ------------------------------------------------------- test_that("test lookup_id- works with sample without error", { skip_on_cran() skip_if(httr::http_error("www.cbioportal.org/api")) db_test <- "public" set_cbioportal_db(db = db_test) lookup_id <- c("P-0001453-T01-IM3", "P-0000004-T01-IM3", "TCGA-OR-A5JA") expect_no_error( x <- lookup_id(lookup_id = lookup_id, base_url = 'www.cbioportal.org/api')) expect_warning( y <- lookup_id(lookup_id = c(lookup_id, "wrong"), base_url = 'www.cbioportal.org/api')) expect_equal(x, y) }) test_that("test lookup_id- works with sample or patient error", { skip_on_cran() skip_if(httr::http_error("www.cbioportal.org/api")) db_test <- "public" set_cbioportal_db(db = db_test) expect_no_error(x <- lookup_id("P-0001453")) expect_no_error(y <- lookup_id("P-0001453-T01-IM3")) expect_gt(nrow(x), nrow(y)) }) test_that("test lookup_id- warns when sample/patient not found", { skip_on_cran() skip_if(httr::http_error("www.cbioportal.org/api")) db_test <- "public" set_cbioportal_db(db = db_test) lookup_id <- c("P-0001453-T01-IM3", "P-0000004-T01-IM3", "XXX") expect_warning( x <- lookup_id(lookup_id = lookup_id, base_url = 'www.cbioportal.org/api')) })